MolNFT v1 · #171975 · protein
Crystal structure of hemoglobin from turkey (meleagiris gallopova) crystallized in monoclinic form at 1.66 ångström resolution
6ZMY · Hemoglobin subunit alpha-a: “Crystal structure of hemoglobin from turkey (meleagiris gallopova) crystallized in monoclinic form at 1.66…”. X-ray diffraction, 1 ligand (HEM), 8 pockets (best druggability 0.81). MolNFT v1 #171975 on…
- PDB
- 6ZMY
- Type
- protein
- Length
- 568 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hemoglobin subunit alpha-a; Hemoglobin beta chain
- UniProt
- P81023, P84479
- Ligands
- HEM
- Pockets
- 8 · best druggability 0.81
Structure
x-ray diffraction · 3 distinct chains · 79% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Hemoglobin subunit alpha-a | protein | 139 | 75% helix, 0% strand | P81023 |
| B, D | Hemoglobin beta chain | protein | 146 | 83% helix, 0% strand | P84479 |
| C | Hemoglobin subunit alpha-a | protein | 137 | 80% helix, 0% strand | P81023 |
Ligands and binding sites
- HEM · Protoporphyrin IX containing Fe · ligand · 4 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 603 | 0.81 | 0.86 | 62 | empty |
| 2 | 249 | 0.76 | 0.89 | 32 | HEM |
| 3 | 254 | 0.72 | 0.86 | 31 | HEM |
| 4 | 200 | 0.69 | 0.86 | 24 | HEM |
| 5 | 209 | 0.69 | 0.85 | 24 | HEM |
Interfaces
6 interfaces between chains.
- A–B · 1037 Ų buried · 8 hydrogen bonds · protein-protein
- C–D · 1008 Ų buried · 10 hydrogen bonds · protein-protein
- A–D · 434 Ų buried · 3 hydrogen bonds · protein-protein
- B–C · 393 Ų buried · 3 hydrogen bonds · protein-protein
- B–D · 326 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 6ZMY · Crystal structure of hemoglobin from turkey (Meleagiris gallopova) crystallized in… · the same entry in another collection · chain A against A, TM-score 1.00
- P81023 · AlphaFold monomer V2.0 prediction for hemoglobin subunit alpha-a (P81023) · a predicted model of the same protein · chain A against A, TM-score 0.99
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt P81023
- Every structure of UniProt P84479
- Elsewhere: RCSB PDB 6ZMY · PDBe 6ZMY · UniProt P81023 · UniProt P84479
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